Variant report

Variant	rs58924506
Chromosome Location	chr6:149380731-149380732
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:149356091..149358662-chr6:149380682..149383777,5	MCF-7	breast:
2	chr6:149378324..149381149-chr6:149381718..149384310,2	K562	blood:
3	chr6:149347925..149355177-chr6:149378699..149385191,19	MCF-7	breast:
4	chr6:149378979..149381253-chr6:149751036..149753374,2	K562	blood:
5	chr6:149376456..149387248-chr6:149393069..149406749,44	MCF-7	breast:
6	chr6:149379587..149381868-chr6:149752319..149755254,2	MCF-7	breast:
7	chr6:149379361..149382289-chr6:149745014..149748004,4	MCF-7	breast:
8	chr6:149376538..149378181-chr6:149380080..149383036,2	K562	blood:
9	chr6:149380086..149382702-chr6:149642964..149645035,2	MCF-7	breast:
10	chr6:149345224..149347260-chr6:149380450..149382499,2	MCF-7	breast:
11	chr6:149373800..149377779-chr6:149379783..149384195,7	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000236591	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17081680	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55816736	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs55976567	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs57237482	1.00[EUR][1000 genomes]
rs58229843	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58877156	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61173696	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6909521	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6928184	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73599932	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73599942	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73599945	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7740389	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7750481	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7752650	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7757287	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7770540	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9485350	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9498192	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032690	chr6:149206106-149398712	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1032319	chr6:149271433-149550525	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv830842	chr6:149272321-149427340	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149305400-149381400	Weak transcription	Gastric	stomach
2	chr6:149354400-149400600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:149355800-149381600	Weak transcription	Right Atrium	heart
4	chr6:149359200-149381400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:149359200-149381400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr6:149359200-149381600	Weak transcription	Ovary	ovary
7	chr6:149359200-149383600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:149362600-149385200	Weak transcription	Aorta	Aorta
9	chr6:149362800-149401400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:149363000-149380800	Weak transcription	Fetal Stomach	stomach
11	chr6:149363200-149394000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:149368200-149381400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr6:149368200-149381800	Weak transcription	Small Intestine	intestine
14	chr6:149369000-149382000	Weak transcription	NHDF-Ad	bronchial
15	chr6:149369000-149398800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:149371400-149396400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:149371800-149397000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr6:149374400-149381000	Enhancers	Dnd41	blood
19	chr6:149375200-149381600	Weak transcription	Left Ventricle	heart
20	chr6:149375800-149381000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr6:149375800-149384000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr6:149376000-149380800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr6:149377000-149380800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr6:149377000-149380800	Weak transcription	HepG2	liver
25	chr6:149377000-149381400	Weak transcription	Fetal Intestine Large	intestine
26	chr6:149377200-149380800	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr6:149377200-149380800	Weak transcription	Primary B cells from cord blood	blood
28	chr6:149377200-149380800	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr6:149377200-149381200	Weak transcription	Duodenum Mucosa	Duodenum
30	chr6:149377800-149380800	Weak transcription	Primary B cells from peripheral blood	blood
31	chr6:149379000-149381600	Enhancers	Rectal Mucosa Donor 31	rectum
32	chr6:149379200-149383400	Enhancers	Fetal Lung	lung
33	chr6:149379200-149385000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
34	chr6:149379400-149384200	Enhancers	Placenta	Placenta
35	chr6:149379400-149388600	Enhancers	Fetal Thymus	thymus
36	chr6:149379600-149381000	Weak transcription	Fetal Intestine Small	intestine
37	chr6:149379600-149381400	Weak transcription	Colon Smooth Muscle	Colon
38	chr6:149379600-149381400	Weak transcription	Esophagus	oesophagus
39	chr6:149379600-149381800	Enhancers	Primary hematopoietic stem cells	blood
40	chr6:149379800-149380800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:149380000-149381000	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr6:149380000-149381000	Enhancers	Primary hematopoietic stem cells short term culture	blood
43	chr6:149380000-149381800	Weak transcription	Liver	Liver
44	chr6:149380000-149383200	Enhancers	Fetal Kidney	kidney
45	chr6:149380200-149380800	Enhancers	ES-I3 Cell Line	embryonic stem cell
46	chr6:149380200-149380800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
47	chr6:149380200-149380800	Enhancers	HUES6 Cell Line	embryonic stem cell
48	chr6:149380200-149381000	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr6:149380200-149381000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr6:149380200-149381600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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